Pseudobulk Dimensionality Reduction Plots

These plots represent the pseudobulking of all cells from a sample into a single point in two-dimensional space. Taken together with the merge summary plots, these may help to identify potential outliers or otherwise problematic samples. Data are visualized with: PCA, UMAP, UMAP3D.

PCA

UMAP

Multi-Sample Summary Plots

The multi-sample summary plots below examine key sample quality metrics (total_features_by_counts, total_counts, pc_mito, pc_ribo) across all experimental samples. These plots may highlight samples with marked differences in these metrics and may be used to inform further quality-control thresholding revision. In more extreme cases (e.g. severe outliers, sample degradation, etc.), it may be appropriate to omit sample(s) from an analysis.

total_features_by_counts

total_counts

pc_mito

pc_ribo

References


scFlow v0.3.1 – 2020-01-20 17:38:45

 

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